Results for "toolkit"
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Awesome bioinformatics pipelines !
A curated list of awesome pipeline toolkits ... https://github.com/pditommaso/awesome-pipelineTags: Bioinformatics, Computational Biology, Toolkit, Pipelines, Tools
2949 days ago
TARDIS: Toolkit for automated and rapid discovery of structural variants
tardis Toolkit for Automated and Rapid DIscovery of Structural variants Requirements zlib (http://www.zlib.net)mrfast (https://github.com/BilkentCompGen/mrfast)htslib (included as submodule; http://htslib.org/)Fetching tardis git clone https://github.com/BilkentCompGen/tardis.git --recursive ...Tags: TARDIS, Toolkit, automated, rapid, discovery, structural, variants
2514 days ago
ALPHA: A Toolkit for Automated Local Phylogenomic Analyses
Automated Local Phylogenomic Analyses, or ALPHA, is a python-based application that provides an intuitive user interface for phylogenetic analyses and data visualization. It has four distinct modes that are useful for different types of phylogenetic analysis: RAxML, File Converter, MS Comparison,...Tags: ALPHA, Toolkit, Automated, Local, Phylogenomic, Analyses
2228 days ago
VGSC: A Web-Based Vector Graph Toolkit of Genome Synteny and Collinearity
VGSC, the Vector Graph toolkit of genome Synteny and Collinearity, and its online service, to visualize the synteny and collinearity in the common graphical format, including both raster (JPEG, Bitmap, and PNG) and vector graphic (SVG, EPS, and PDF).Tags: VGSC, Web-Based, Vector, Graph, Toolkit, Genome, Synteny, Collinearity
2006 days ago
Peregrine & SHIMMER Genome Assembly Toolkit
Peregrine is a fast genome assembler for accurate long reads (length > 10kb, accuracy > 99%). It can assemble a human genome from 30x reads within 20 cpu hours from reads to polished consensus. It uses Sparse HIereachical MimiMizER (SHIMMER) for fast read-to-read overlaping without quadrati...Tags: Peregrine, SHIMMER, Genome, Assembly, Toolkit
863 days ago
Jvarkit : Java utilities for Bioinformatics
Collection of Java tool kits for bioinformatics works: Jvarkit : Java utilities for BioinformaticsTags: Bioinformatics, NGS, Java, toolkit, Genome, NGS, reads
2150 days ago
KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
KAT is a suite of tools that analyse jellyfish hashes or sequence files (fasta or fastq) using kmer counts. The following tools are currently available in KAT: hist: Create an histogram of k-mer occurrences from a sequence file. Adds metadata in output for easy plotting. gcp: K-mer GC Pr...Tags: KAT, K-mer, analysis, toolkit, quality, control, NGS, datasets, genome, assemblies
1973 days ago
- GTDB-Tk is a software toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes. It is computationally efficient and designed to work with recent advances that allow hundreds or thousands of metagenome-assembled genomes (MAGs) to be obtained directly from environ...
Tags: GTDB-Tk, toolkit, assign, objective, taxonomic, classifications, bacterial, archaeal, genomes
2075 days ago
SeqKit - a cross-platform and ultrafast toolkit for FASTA/Q file manipulation
FASTA and FASTQ are basic and ubiquitous formats for storing nucleotide and protein sequences. Common manipulations of FASTA/Q file include converting, searching, filtering, deduplication, splitting, shuffling, and sampling. Existing tools only implement some of these manipulations, and not parti...Tags: SeqKit, cross-platform, ultrafast, toolkit, FASTA/Q, manipulation
1924 days ago
